miR-Intess: classification

other hairpins

block713343 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.410	no	no	0.50/0.53	19/22/0.80	0.4	1.2	5	0	1	0	17	-9	5arm_loop	1	nd	0.26	5	5	1	na	na

		reads	miRBase family seed
seed	--------------------CCCGUUU----------------------------------------------------------	4	novel
seed	------------------CUCCCGU------------------------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	-------------------TCCCGTTTCCGGCTTAATGTC---------------------------------------------	21	2
	-------------------TCCCGTTTCCGGCTTAATGTCT--------------------------------------------	22	2
	-----------------TCTCCCGTTTCCGGCTTAA-------------------------------------------------	19	1
rat	tggaacacagcagagtcTCTCCCGTTTCCGGCTTAATGTCTtctgctgggaggaaaatggtgccagagcagttctgaggtttcta
	*************************************************************************************
rat	.(((((....(((((.((((((((((((((((............))))))).....)))).....))).)))))))..)))))..	0.410 -22.80

rat

chromosome:18:63582979:63583063:-1

intergenic

block1061092 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.176	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	34	-1	5arm_loop	1	nd	0.30	4	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------CCUGGUA------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	----------------------------------TCCTGGTAGCCTGAGGCACA------------------------------------------------------------------	20	1
rat	taggaagccagagggcctggtccttgcatcccctTCCTGGTAGCCTGAGGCACAttcagtgcctgtctaccatctcaagttcaaaggttaaggcaagtagcaagacggctcgagctcctg
	************************************************************************************************************************
rat	((((.(((....(((((..((.(((((((..((((((((((((....((((((.....))))))..)))))).............))..))))...)).))))))))))))..)))))))	0.550 -38.51

rat

chromosome:20:5527443:5527562:-1

intergenic

block1091423 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.037	no	no	0.71/0.71	21/21/1.00	0.0	0.0	1	0	1	0	6	-4	5arm_loop	2	nd	0.24	5	1	1	na	na

		reads	miRBase family seed
seed	-------UCCCUCC-----------------------------------------------	1	novel
		len	cloning frequencies
			T2S2
	------TTCCCTCCGGACCCCGCACTC----------------------------------	21	1
rat	ggccatTTCCCTCCGGACCCCGCACTCaccagcgcgggtctgggtccgggccaaggcggcc
	*************************************************************
	-----------------------------------------------------------------------	ENSRNOT00000042972 ENSRNOG00000029682 Clic1
	----------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000041917 ENSRNOG00000021604 RT1-CE1
	----------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000061027 ENSRNOG00000021604 RT1-CE1
	----------------------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000061025 ENSRNOG00000021604 RT1-CE1
	-----------------------<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<	ENSRNOT00000048535 ENSRNOG00000021604 RT1-CE1
rat	((((.((((((((((((((((((........))).)))))))))...)))..)))..))))	0.930 -30.40

rat

chromosome:20:3597917:3597977:1

Opposite_strand|Intronic_coding|ENSRNOT00000061027|ENSRNOG00000021604 ## Opposite_strand|Boundary_coding|ENSRNOT00000048535|ENSRNOG00000021604 ## Opposite_strand|Boundary_non-coding|ENSRNOT00000000951|ENSRNOG00000021604 ## ENSRNOG00000021604|protein_coding|RT1-CE1|RT1 class I, CE1 [Source:RefSeq_peptide;Acc:NP_001008832] ## ENSRNOG00000029682|protein_coding|Clic1|chloride intracellular channel 1 [Source:RefSeq_peptide;Acc:NP_001002807] ## {SimpF: oe = 1.08 1 CpG}

block1496818 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.990	no	no	0.50/0.50	20/20/1.00	0.0	0.0	2	0	1	0	26	-1	3arm	1	nd	0.30	4	2	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------------GGUGCUA--------------------------------------	2	novel
		len	cloning frequencies
			T5S2
	------------------------------------------------------AGGTGCTAGCTAGATACTGC--------------------------	20	2
rat	cgggaactgtagtccccagaagaggaagaggcgcgacctgctttccagtcctagAGGTGCTAGCTAGATACTGCccttgaaactcgcctgtgcaccccgc
	****************************************************************************************************
rat	((((...((((.....(((..(((...((((.(((..(((((....(((((....)).)))))).))....)))))))....)))..))))))).)))).	0.440 -24.20

rat

chromosome:3:135146002:135146101:1

intergenic

block1572823 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.063	no	no	0.48/0.48	23/23/1.00	0.0	0.0	2	0	1	0	30	-2	3arm_loop	1	nd	0.30	4	2	1	na	na

		reads	miRBase family seed
seed	-----------------------------------------------------------------AGGAGAC---------------------------------------------	2	novel
		len	cloning frequencies
			T5S1
	----------------------------------------------------------------CAGGAGACTCAGGTTTGTCAAAG------------------------------	23	2
rat	ctgcttatatagtattttagggcattaggtcccaggcagtacaacacttcagtccaggccatgtCAGGAGACTCAGGTTTGTCAAAGctagggatacggtgccactgtcatagtggg
	*********************************************************************************************************************
rat	(((((...(((((.......((((((..(((((.(((...((((.((((.((((....((......)).)))).))))))))....))).)))))..)))))))))))...))))).	0.740 -36.41

rat

chromosome:4:116142002:116142118:-1

intergenic

block1696658 [novel_loopOverlap_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.401	no	no	0.35/0.35	20/20/1.00	0.0	0.0	1	0	1	0	32	-1	3arm	1	nd	0.25	4	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------------------------GCUUAUU--------------------------------------------	1	novel
		len	cloning frequencies
			T5S1
	------------------------------------------------AGCTTATTGACAACCATGAA--------------------------------	20	1
rat	ctaccaagcccatttccccagcccacttcctgccttttgataggtatcAGCTTATTGACAACCATGAAgttcaatgtcagacatgttccctctgtgtagt
	****************************************************************************************************
rat	((((((((..(((.((..((....(((((.((....(((((((((....)))))))))....)).)))))....))...)).)))....)).)).)))).	0.670 -15.50

rat

chromosome:4:164284259:164284358:1

intergenic

novel_lenNOK_Multihit_randfoldOK (304 loci)

block22234 [novel_lenNOK_Multihit_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.001	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	17	20	3arm	22	nd	0.28	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------CCUUGGU---------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------------------------------------------------------TCCTTGGTTAAGTAGGAC-----------------	18	1
rat	acaggtttacttgtccttggctaagtaagacttacaggtttacctgtccttgtaagtaggacttacaggtttacctgTCCTTGGTTAAGTAGGACttacaggtttacctgtc
	****************************************************************************************************************
rat	((((((..(((((((((((((((((........((((((..(((((((((.......)))))....))))..)))))).))))))))...)))))....))))..)))))).	0.890 -40.20

rat

chromosome:10:49371461:49371572:-1

intergenic ## {Repeats: trf 328 346 0 class=trf}

block22247 [novel_lenNOK_Multihit_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.001	no	no	0.44/0.44	18/18/0.00	0.0	0.0	1	0	1	0	17	20	3arm	22	nd	0.22	3	1	1	na	na

		reads	miRBase family seed
seed	------------------------------------------------------------------------------CCUUGGU---------------------------	1	novel
		len	cloning frequencies
			T1S1
	-----------------------------------------------------------------------------TCCTTGGTTAAGTAGGAC-----------------	18	1
rat	acaggtttacttgtccttggctaagtaggacttacaggtttacctgtccttgtaagtaggacttacaggtttacctgTCCTTGGTTAAGTAGGACttacaggtttacctgtc
	****************************************************************************************************************
rat	((((((..(((((((((((((((...(((((....((((..(((((((((.......)))))....))))..)))))))))))))))...)))))....))))..)))))).	0.530 -40.70

rat

chromosome:10:49373069:49373180:-1

intergenic ## {Repeats: trf 507 525 0 class=trf}

block32923 [novel_lenNOK_Multihit_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.001	no	no	0.42/0.42	19/19/0.00	0.0	0.0	1	0	1	0	11	17	5arm	14	nd	0.05	1	1	1	na	na

		reads	miRBase family seed
seed	------------GCCUCAU-------------------------------------------------------------------------------------------------	1	miR-421
		len	cloning frequencies
			T2S2
	-----------TGCCTCATCTTTCTTCTCT--------------------------------------------------------------------------------------	19	1
rat	tcttggacctcTGCCTCATCTTTCTTCTCTtgcgcttcagcctgcgcattctcttcttccgccacttcgctctcatggcgcaggagtctcaaggaagatggcgctaagaccgagag
	********************************************************************************************************************
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000003507 ENSRNOG00000002598 Hnf1b
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000034847 ENSRNOG00000002598 Hnf1b
	------------------------------------------------------------------------------------------------------------------------------	ENSRNOT00000047427 ENSRNOG00000002598 Hnf1b
rat	((((((..((..((.(((((((((((((((((((((..(((.((.((.............))))....))).....))))))))))....))))))))))).))..)).)))))).	0.470 -41.52

rat

chromosome:10:72147217:72147332:-1

block120422 [novel_lenNOK_Multihit_randfoldOK]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.003	no	no	0.53/0.53	19/19/0.00	0.0	0.0	1	0	1	0	34	0	5arm	14	nd	0.26	3	1	1	na	na

		reads	miRBase family seed
seed	-----------------------------------GCCCUAG------------------------------------------------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	----------------------------------AGCCCTAGATCAGGAGATC-------------------------------------------------------------------	19	1
rat	gggagaggagagataattatgttcctgaggtctcAGCCCTAGATCAGGAGATCgctgaggtagatcctgacaccaaggaaatgctgaagcttctggactttggcaatctctccaacctct
	************************************************************************************************************************
rat	.((((.((((((((..(((...(((.((((..((((((((...((((((.(((.....)))...)))))).....)))....)))))..)))).)))...)))..))))))))...))))	0.780 -44.50